X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.15
Details PROTEIN WAS CRYSTALLIZED FROM 20% PEG 8000 75 MM NACL 7 MM MGCL2 50 MM MES, PH 6.15 40 MM NACITRATE 1 MM DTT 1 MM SPERMINE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 107.32 α = 90
b = 107.32 β = 90
c = 108.71 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 113
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRROR 1996-02-10
Diffraction Radiation
Monochromator Protocol
SI(111) --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X12C -- NSLS X12C

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.9 16 98.9 -- 0.042 -- 2.8 -- 110468 -- 0.0 23.0
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.9 1.93 99.5 -- 0.251 4.0 2.7 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MIRAS 1.9 16.0 -- 1.0 -- 36385 3686 98.9 -- 0.199 0.199 0.232 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.9 1.93 -- 189 1642 0.309 0.32 0.023 99.5
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 26.0
Anisotropic B[1][1] 4.03
Anisotropic B[1][2] 1.91
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.03
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.64
RMS Deviations
Key Refinement Restraint Deviation
x_scangle_it 3.504
x_scbond_it 1.808
x_mcangle_it 2.253
x_mcbond_it 1.097
x_improper_angle_d 1.131
x_bond_d 0.007
x_angle_deg 1.178
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2618
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 195

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
X-PLOR 3.851 Structure Solution
X-PLOR 3.851 Structure Refinement
Software
Software Name Purpose
X-PLOR version: 3.851 refinement
X-PLOR version: 3.851 model building